Locus 1998

Sequence ID 3R_DroMel_CAF1
Location 5,658,941 – 5,659,047
Length 106
Max. P 0.535308
window3270

overview

Window 0

Location 5,658,941 – 5,659,047
Length 106
Sequences 4
Columns 106
Reading direction forward
Mean pairwise identity 87.98
Mean single sequence MFE -21.73
Consensus MFE -15.66
Energy contribution -15.22
Covariance contribution -0.44
Combinations/Pair 1.11
Mean z-score -1.47
Structure conservation index 0.72
SVM decision value 0.00
SVM RNA-class probability 0.535308
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5658941 106 + 27905053
AAAGUGCAUUGGAAAACAUUUGCGUAUAUAUGUAUGUAUGUUUGUUUGCAUAUUGGGUAUUUAAAUUUUUUAACAUCCUCUAUAUGCCUGGGCACGUUUCUUCGUU
...((((.(..(.(((((...((((((((....)))))))).)))))((((((.(((...((((.....))))...)))..)))))))..)))))........... ( -25.30)
>DroSec_CAF1 12596 106 + 1
AAAGUGCAUUGGAAAACAUUUGCGUAUAUAUAUAUGUAUUUAUGUAUGCAUAUUGGGUAUUUAAAUUUUUUAACAUCCUCUAUAUGCCUGGGCACGUUUCUCCGUU
...((((.(..(...((((.(((((((....)))))))...))))..((((((.(((...((((.....))))...)))..)))))))..)))))........... ( -23.20)
>DroEre_CAF1 9559 94 + 1
AAAGUGCAUUGGAAAACAUUUGCGUAUAUCUGUAUGU------------ACAUUGGGUAUUUAAAUUUUUUAACAUCCUUUAUAUGCCCGGGCACGUUUCUCCGUU
..........(((((((...(((((((((....))))------------)).((((((((.((((.............)))).))))))))))).)))).)))... ( -19.92)
>DroYak_CAF1 12861 94 + 1
AAAGUGCAUUGGAAAACAUUUGCGUAUAUCUGUAUGU------------ACAUUGGGUAUUUAAAUUUUUGAACAUCCUCUAUAUGCCCGGGCACGUUUCUCCGUU
...((((.((((........(((((((....))))))------------)....((((.(((((....))))).)))).........))))))))........... ( -18.50)
>consensus
AAAGUGCAUUGGAAAACAUUUGCGUAUAUAUGUAUGU____________ACAUUGGGUAUUUAAAUUUUUUAACAUCCUCUAUAUGCCCGGGCACGUUUCUCCGUU
...((((..............((((((....))))))...............((((((((.......................))))))))))))........... (-15.66 = -15.22 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:24:46 2006